Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0013963

Physical Location & Seq

Genomic Coordinates Forward (+)

39168110 .. 39169543

Gene Structure 1434 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG199500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 750 bp

ATGCAGAATCCAGAAACTAATCATCAACGAGTTTTTGGGATTTTTGGATTCACTGATCGAAATGCGACGTCGTTTCGGCGAGGAATCGACGTGAACCAGGCGGCGGTGGGGGATTACGAGGACGAAAACGGCGTGTCGTCTCCGAACAGCACGGTGTCGAGCCTGAGCGGGAAGCGTAGCGAGAGAGGCGAAGACAACGAGGCGGAGAGGACTTCGTGCTCGCTCGGCGGAAGCGACGATGAGGACGGCATTGGCGGCGGCGACACGTCGAAGAAGAAGGTCCGCCTCACCAAGGAGCAGTCTCTGCTGCTCGAGGACATGTTCAAGGAGCACCACACTCTCAACACGGGCATTGAAATTAATTTTGAATGCAGGACTAAGTTGAAGCAAACAGAGGTGGATTGTGATCAACTAAGGAAGTGCTGTGAGAATCTAACAGAAGAGAACAGGAGGTTGCAGAAAGAAGTGCAAGAGCTGAGGGCACTCAAGCTCTCGCCACAGTTCTACATGCAAATGAACCCTCCCACAACTCTCACCATGTGCCCTTCATGCCAATGTGTGGGTGTCTCATCCTCATCTTCATCTTCTGCTAGTGCTACTACTGCTTCCTCCACAGTTCCGGCAACCAGCCCAACTGGCCACCCAGGGAAGGCAACTATCCATCGGCCTGTTCCAATCAGCCCGTGGGCCACATTGCCGATCCCACAGCATCGACCAGTTGATGCACCCGCACCTGCATCTCGGTCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003700 GO:0005575 GO:0005911 GO:0006355 GO:0008150 GO:0009314 GO:0009416 GO:0009506 GO:0009628 GO:0009639 GO:0009641 GO:0009719 GO:0009725 GO:0009889 GO:0010033 GO:0010218 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0030054 GO:0031323 GO:0031326 GO:0042221 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0055044 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HALZ HD-ZIP_N Homeobox

Protein Analysis

249

Amino Acids

27.13

Weight (kDa)

5.91

Isoelectric Point (pI)

59.95

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HD-ZIP_N	PF04618	21 - 62	1.3e-14	HD-ZIP protein N terminus
HALZ	PF02183	129 - 163	1.2e-10	Homeobox associated leucine zipper

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0013963)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G60390
fragaria_vesca	FvH4_7g09820 FvH4_7g09820 FvH4_7g09820
malus_domestica	MD02G1216800.v1.1
prunus_persica	Prupe.2G127300_v2.0.a1
pyrus_communis	pycom02g17850
rosa_chinensis	RchiOBHm_Chr1g0346981
rosa_laevigata	RLG00000028766
rosa_multiflora	Rmu_co8350045.1_g000001 Rmu_sc0002705.1_g000018
rosa_roxburghii	Rroxscaffold_4G00308000
rosa_samantha	Rh1AG202800 Rh1BG168800 Rh1CG187500 Rh1DG199500
rosa_wichuraiana	Rw1G016990

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	742
AatII	GACGTC	1 cut(s)	71
Acc36I	ACCTGC	1 cut(s)	742
AccB7I	CCANNNNNTGG	1 cut(s)	559
AccBSI	CCGCTC	1 cut(s)	168
AciI	CCGC	9 cut(s)	101, 104, 168, 203, 228, 255, 258, 283, 729
AclWI	GGATC	1 cut(s)	694
AcoI	YGGCCR	1 cut(s)	637
AcyI	GRCGYC	1 cut(s)	68
AdeI	CACNNNGTG	1 cut(s)	540
AfiI	CCNNNNNNNGG	4 cut(s)	103, 292, 559, 649
AflIII	ACRYGT	2 cut(s)	264, 318
AgsI	TTSAA	4 cut(s)	325, 356, 368, 385
AjiI	CACGTC	2 cut(s)	91, 267
AjnI	CCWGG	2 cut(s)	96, 643
AluBI	AGCT	2 cut(s)	475, 490
AluI	AGCT	2 cut(s)	475, 490
Alw21I	GWGCWC	2 cut(s)	221, 333
Alw26I	GTCTC	3 cut(s)	144, 306, 571
AlwI	GGATC	1 cut(s)	694
AlwNI	CAGNNNCTG	1 cut(s)	304
Ama87I	CYCGRG	1 cut(s)	311
AoxI	GGCC	3 cut(s)	637, 665, 687
ApeKI	GCWGC	1 cut(s)	307
AseI	ATTAAT	1 cut(s)	360
AspS9I	GGNCC	2 cut(s)	280, 687
AsuHPI	GGTGA	2 cut(s)	280, 526
AvaI	CYCGRG	1 cut(s)	311
AvaII	GGWCC	1 cut(s)	280
BaeGI	GKGCMC	2 cut(s)	484, 545
BalI	TGGCCA	1 cut(s)	639
BbsI	GAAGAC	1 cut(s)	198
Bbv12I	GWGCWC	2 cut(s)	221, 333
BbvCI	CCTCAGC	1 cut(s)	476
BbvI	GCAGC	1 cut(s)	294
BccI	CCATC	1 cut(s)	669
BceAI	ACGGC	2 cut(s)	145, 262
BcgI	CGANNNNNNTGC	1 cut(s)	726
BciT130I	CCWGG	2 cut(s)	98, 645
BclI	TGATCA	1 cut(s)	406
BcoDI	GTCTC	3 cut(s)	144, 306, 571
BfaI	CTAG	1 cut(s)	591
BfuAI	ACCTGC	1 cut(s)	742
BglI	GCCNNNNNGGC	1 cut(s)	636
BisI	GCNGC	4 cut(s)	102, 256, 259, 308
BlsI	GCNGC	4 cut(s)	103, 257, 260, 309
Bme1390I	CCNGG	2 cut(s)	98, 645
Bme18I	GGWCC	1 cut(s)	280
BmeT110I	CYCGRG	1 cut(s)	311
BmgBI	CACGTC	2 cut(s)	91, 267
BmgT120I	GGNCC	2 cut(s)	280, 687
BmrFI	CCNGG	2 cut(s)	98, 645
BmsI	GCATC	3 cut(s)	712, 718, 746
BpiI	GAAGAC	1 cut(s)	198
Bpu10I	CCTNAGC	2 cut(s)	164, 476
BpuEI	CTTGAG	1 cut(s)	470
BsaBI	GATNNNNATC	1 cut(s)	405
BsaHI	GRCGYC	1 cut(s)	68
BsaJI	CCNNGG	4 cut(s)	291, 643, 644, 683
Bsc4I	CCNNNNNNNGG	4 cut(s)	103, 292, 559, 649
Bse1I	ACTGG	2 cut(s)	640, 716
Bse3DI	GCAATG	1 cut(s)	692
Bse8I	GATNNNNATC	1 cut(s)	405
BseBI	CCWGG	2 cut(s)	98, 645
BseDI	CCNNGG	4 cut(s)	291, 643, 644, 683
BseGI	GGATG	1 cut(s)	569
BseJI	GATNNNNATC	1 cut(s)	405
BseLI	CCNNNNNNNGG	4 cut(s)	103, 292, 559, 649
BseMI	GCAATG	1 cut(s)	692
BseMII	CTCAG	2 cut(s)	155, 467
BseNI	ACTGG	2 cut(s)	640, 716
BseSI	GKGCMC	2 cut(s)	484, 545
BseXI	GCAGC	1 cut(s)	294
Bsh1285I	CGRYCG	1 cut(s)	746
BshFI	GGCC	3 cut(s)	639, 667, 689
BsiEI	CGRYCG	1 cut(s)	746
BsiHKAI	GWGCWC	2 cut(s)	221, 333
BsiHKCI	CYCGRG	1 cut(s)	311
BsiSI	CCGG	1 cut(s)	620
BslI	CCNNNNNNNGG	4 cut(s)	103, 292, 559, 649
BsmAI	GTCTC	3 cut(s)	144, 306, 571
BsmBI	CGTCTC	1 cut(s)	144
BsmI	GAATGC	1 cut(s)	374
BsnI	GGCC	3 cut(s)	639, 667, 689
BsoBI	CYCGRG	1 cut(s)	311
Bsp1286I	GDGCHC	4 cut(s)	221, 333, 484, 545
Bsp143I	GATC	3 cut(s)	55, 406, 699
BspACI	CCGC	9 cut(s)	101, 104, 168, 203, 228, 255, 258, 283, 729
BspANI	GGCC	3 cut(s)	639, 667, 689
BspCNI	CTCAG	2 cut(s)	156, 468
BspMI	ACCTGC	1 cut(s)	742
BspPI	GGATC	1 cut(s)	694
BsrBI	CCGCTC	1 cut(s)	168
BsrDI	GCAATG	1 cut(s)	692
BsrI	ACTGG	2 cut(s)	640, 716
BssECI	CCNNGG	4 cut(s)	291, 643, 644, 683
BssMI	GATC	3 cut(s)	55, 406, 699
BssNI	GRCGYC	1 cut(s)	68
BssT1I	CCWWGG	1 cut(s)	291
Bst2UI	CCWGG	2 cut(s)	98, 645
Bst4CI	ACNGT	3 cut(s)	154, 501, 616
Bst6I	CTCTTC	1 cut(s)	435
BstACI	GRCGYC	1 cut(s)	68
BstAPI	GCANNNNNTGC	1 cut(s)	304
BstC8I	GCNNGC	1 cut(s)	221
BstDEI	CTNAG	4 cut(s)	164, 378, 413, 476
BstDSI	CCRYGG	1 cut(s)	683
BstENI	CCTNNNNNAGG	1 cut(s)	290
BstF5I	GGATG	1 cut(s)	569
BstKTI	GATC	3 cut(s)	58, 409, 702
BstMAI	GTCTC	3 cut(s)	144, 306, 571
BstMBI	GATC	3 cut(s)	55, 406, 699
BstMCI	CGRYCG	1 cut(s)	746
BstMWI	GCNNNNNNNGC	7 cut(s)	186, 225, 255, 304, 549, 602, 636
BstNI	CCWGG	2 cut(s)	98, 645
BstNSI	RCATGY	2 cut(s)	322, 511
BstSCI	CCNGG	2 cut(s)	96, 643
BstSLI	GKGCMC	2 cut(s)	484, 545
BstV1I	GCAGC	1 cut(s)	294
BstV2I	GAAGAC	1 cut(s)	198
BsuRI	GGCC	3 cut(s)	639, 667, 689
BtgI	CCRYGG	1 cut(s)	683
BtrI	CACGTC	2 cut(s)	91, 267
BtsCI	GGATG	1 cut(s)	569
BtsIMutI	CAGTG	1 cut(s)	51
BveI	ACCTGC	1 cut(s)	742
Cac8I	GCNNGC	1 cut(s)	221
CaiI	CAGNNNCTG	1 cut(s)	304
Cfr13I	GGNCC	2 cut(s)	280, 687
CviAII	CATG	4 cut(s)	319, 508, 538, 549
CviJI	RGCY	8 cut(s)	162, 475, 490, 630, 639, 667, 681, 689
CviKI_1	RGCY	8 cut(s)	162, 475, 490, 630, 639, 667, 681, 689
DdeI	CTNAG	4 cut(s)	164, 378, 413, 476
DpnI	GATC	3 cut(s)	57, 408, 701
DpnII	GATC	3 cut(s)	55, 406, 699
DraIII	CACNNNGTG	1 cut(s)	540
EaeI	YGGCCR	1 cut(s)	637
Eam1104I	CTCTTC	1 cut(s)	435
EarI	CTCTTC	1 cut(s)	435
EciI	GGCGGA	3 cut(s)	218, 243, 272
Eco130I	CCWWGG	1 cut(s)	291
Eco47I	GGWCC	1 cut(s)	280
Eco88I	CYCGRG	1 cut(s)	311
EcoNI	CCTNNNNNAGG	1 cut(s)	290
EcoRII	CCWGG	2 cut(s)	96, 643
EcoT14I	CCWWGG	1 cut(s)	291
ErhI	CCWWGG	1 cut(s)	291
Esp3I	CGTCTC	1 cut(s)	144
FaeI	CATG	4 cut(s)	322, 511, 541, 552
FaiI	YATR	4 cut(s)	320, 509, 539, 550
FatI	CATG	4 cut(s)	318, 507, 537, 548
FauI	CCCGC	2 cut(s)	161, 736
FbaI	TGATCA	1 cut(s)	406
Fnu4HI	GCNGC	4 cut(s)	102, 256, 259, 308
FokI	GGATG	1 cut(s)	556
Fsp4HI	GCNGC	4 cut(s)	102, 256, 259, 308
FspBI	CTAG	1 cut(s)	591
GluI	GCNGC	4 cut(s)	102, 256, 259, 308
HaeIII	GGCC	3 cut(s)	639, 667, 689
HapII	CCGG	1 cut(s)	620
Hin1I	GRCGYC	1 cut(s)	68
Hin1II	CATG	4 cut(s)	322, 511, 541, 552
HinfI	GANTC	4 cut(s)	7, 48, 84, 430
HpaII	CCGG	1 cut(s)	620
HphI	GGTGA	2 cut(s)	280, 526
Hpy166II	GTNNAC	1 cut(s)	94
Hpy188I	TCNGA	1 cut(s)	144
Hpy188III	TCNNGA	2 cut(s)	11, 747
Hpy8I	GTNNAC	1 cut(s)	94
Hpy99I	CGWCG	5 cut(s)	70, 73, 92, 239, 271
HpyAV	CCTTC	3 cut(s)	271, 555, 643
HpyCH4III	ACNGT	3 cut(s)	154, 501, 616
HpyCH4IV	ACGT	3 cut(s)	68, 90, 266
HpyCH4V	TGCA	7 cut(s)	4, 372, 457, 469, 511, 725, 737
HpyF10VI	GCNNNNNNNGC	7 cut(s)	186, 225, 255, 304, 549, 602, 636
HpyF3I	CTNAG	4 cut(s)	164, 378, 413, 476
HpySE526I	ACGT	3 cut(s)	68, 90, 266
Hsp92I	GRCGYC	1 cut(s)	68
Hsp92II	CATG	4 cut(s)	322, 511, 541, 552
Ksp22I	TGATCA	1 cut(s)	406
Kzo9I	GATC	3 cut(s)	55, 406, 699
LmnI	GCTCC	2 cut(s)	295, 328
Lsp1109I	GCAGC	1 cut(s)	294
LweI	GCATC	3 cut(s)	712, 718, 746
MaeI	CTAG	1 cut(s)	591
MaeII	ACGT	3 cut(s)	68, 90, 266
MalI	GATC	3 cut(s)	57, 408, 701
MbiI	CCGCTC	1 cut(s)	168
MboI	GATC	3 cut(s)	55, 406, 699
MboII	GAAGA	6 cut(s)	203, 283, 286, 452, 570, 576
MhlI	GDGCHC	4 cut(s)	221, 333, 484, 545
MlsI	TGGCCA	1 cut(s)	639
MluCI	AATT	2 cut(s)	357, 361
MluNI	TGGCCA	1 cut(s)	639
Mox20I	TGGCCA	1 cut(s)	639
MscI	TGGCCA	1 cut(s)	639
MseI	TTAA	1 cut(s)	360
MslI	CAYNNNNRTG	2 cut(s)	512, 553
Msp20I	TGGCCA	1 cut(s)	639
MspI	CCGG	1 cut(s)	620
MspR9I	CCNGG	2 cut(s)	98, 645
Mva1269I	GAATGC	1 cut(s)	374
MvaI	CCWGG	2 cut(s)	98, 645
MwoI	GCNNNNNNNGC	7 cut(s)	186, 225, 255, 304, 549, 602, 636
NdeII	GATC	3 cut(s)	55, 406, 699
NlaIII	CATG	4 cut(s)	322, 511, 541, 552
NmeAIII	GCCGAG	1 cut(s)	204
NspI	RCATGY	2 cut(s)	322, 511
PaeR7I	CTCGAG	1 cut(s)	311
PaqCI	CACCTGC	1 cut(s)	742
PasI	CCCWGGG	1 cut(s)	644
PciI	ACATGT	1 cut(s)	318
PcsI	WCGNNNNNNNCGW	2 cut(s)	129, 231
PctI	GAATGC	1 cut(s)	374
PfeI	GAWTC	4 cut(s)	7, 48, 84, 430
PflMI	CCANNNNNTGG	1 cut(s)	559
PkrI	GCNGC	4 cut(s)	103, 257, 260, 309
PscI	ACATGT	1 cut(s)	318
PshBI	ATTAAT	1 cut(s)	360
Psp6I	CCWGG	2 cut(s)	96, 643
PspGI	CCWGG	2 cut(s)	96, 643
PspPI	GGNCC	2 cut(s)	280, 687
PspXI	VCTCGAGB	1 cut(s)	311
PstNI	CAGNNNCTG	1 cut(s)	304
RseI	CAYNNNNRTG	2 cut(s)	512, 553
SaqAI	TTAA	1 cut(s)	360
SatI	GCNGC	4 cut(s)	102, 256, 259, 308
Sau3AI	GATC	3 cut(s)	55, 406, 699
Sau96I	GGNCC	2 cut(s)	280, 687
ScrFI	CCNGG	2 cut(s)	98, 645
SduI	GDGCHC	4 cut(s)	221, 333, 484, 545
SetI	ASST	9 cut(s)	71, 93, 269, 282, 399, 455, 477, 492, 736
SfaNI	GCATC	3 cut(s)	712, 718, 746
Sfr274I	CTCGAG	1 cut(s)	311
SinI	GGWCC	1 cut(s)	280
SlaI	CTCGAG	1 cut(s)	311
SmiMI	CAYNNNNRTG	2 cut(s)	512, 553
SmlI	CTYRAG	2 cut(s)	311, 485
SmoI	CTYRAG	2 cut(s)	311, 485
Sse9I	AATT	2 cut(s)	357, 361
SsiI	CCGC	9 cut(s)	101, 104, 168, 203, 228, 255, 258, 283, 729
SspMI	CTAG	1 cut(s)	591
StyD4I	CCNGG	2 cut(s)	96, 643
StyI	CCWWGG	1 cut(s)	291
TaaI	ACNGT	3 cut(s)	154, 501, 616
TaiI	ACGT	3 cut(s)	71, 93, 269
TaqI	TCGA	6 cut(s)	58, 87, 158, 269, 312, 712
TaqII	GACCGA	1 cut(s)	732
TasI	AATT	2 cut(s)	357, 361
TauI	GCSGC	3 cut(s)	104, 258, 261
TfiI	GAWTC	4 cut(s)	7, 48, 84, 430
Tru1I	TTAA	1 cut(s)	360
Tru9I	TTAA	1 cut(s)	360
TscAI	CASTG	1 cut(s)	58
TseI	GCWGC	1 cut(s)	307
TspDTI	ATGAA	3 cut(s)	530, 537, 570
TspRI	CASTG	1 cut(s)	58
Van91I	CCANNNNNTGG	1 cut(s)	559
VpaK11BI	GGWCC	1 cut(s)	280
VspI	ATTAAT	1 cut(s)	360
XagI	CCTNNNNNAGG	1 cut(s)	290
XceI	RCATGY	2 cut(s)	322, 511
XcmI	CCANNNNNNNNNTGG	1 cut(s)	681
XhoI	CTCGAG	1 cut(s)	311
XspI	CTAG	1 cut(s)	591
ZraI	GACGTC	1 cut(s)	69

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.